genome.fa.s1736.2.7.7.80.10.50.1000.7.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01001736.1 Hibiscus syriacus cultivar Beakdansim tig00003507_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1778036

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 999 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1290351--1290394	19	2.3	19	92	0	70	47	18	0	34	1.49
1297763--1297809	2	23.5	2	100	0	94	48	0	0	51	1.00
1305312--1305355	23	1.9	23	90	0	70	38	25	18	18	1.92
1305597--1305659	30	2.1	30	96	0	117	33	19	6	41	1.76
1307390--1307559	80	2.1	80	92	2	279	28	24	12	34	1.92
1311872--1311911	21	1.9	21	94	0	71	25	27	22	25	2.00
1312770--1312832	30	2.1	30	93	0	108	33	22	4	39	1.75
1317800--1317856	24	2.3	25	84	3	71	33	22	21	22	1.97
1321076--1321104	2	14.5	2	100	0	58	51	0	0	48	1.00
1322564--1322606	21	2.0	21	95	0	77	32	11	13	41	1.81
1322961--1323015	25	2.2	25	100	0	110	21	16	23	38	1.93
1324030--1324071	2	21.0	2	100	0	84	50	0	0	50	1.00
1324647--1324685	11	3.8	11	90	9	57	43	0	0	56	0.99
1324833--1324911	23	3.4	23	84	3	106	54	2	1	41	1.22
1324802--1324917	23	5.6	20	72	18	69	54	1	1	42	1.21
1325321--1325376	2	28.0	2	100	0	112	0	50	0	50	1.00
1328669--1328695	11	2.5	11	100	0	54	85	0	0	14	0.61
1335307--1335356	20	2.5	20	87	9	66	32	18	20	30	1.96
1342790--1342829	21	1.9	21	89	0	62	25	40	25	10	1.86
1345493--1345532	21	1.9	21	94	0	71	22	40	25	12	1.89
1346799--1346832	14	2.3	15	85	10	52	38	8	14	38	1.78
1347730--1347787	20	2.9	20	82	5	73	39	13	3	43	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1349871--1349924	24	2.2	24	90	0	81	29	27	24	18	1.98
1349900--1349999	46	2.1	47	87	8	143	32	21	24	23	1.98
1349931--1349999	23	3.0	23	78	0	93	30	20	26	23	1.98
1358978--1359036	2	29.5	2	100	0	118	49	0	0	50	1.00
1357623--1360073	713	3.3	718	79	9	2384	40	12	12	34	1.80
1358265--1360072	744	2.4	722	82	7	2065	40	12	12	34	1.80
1359973--1360264	155	1.9	155	93	0	503	46	13	11	28	1.78
1360750--1360813	20	3.2	20	77	4	67	45	6	20	28	1.75
1360874--1360898	11	2.3	11	100	0	50	64	0	8	28	1.22
1361569--1361999	229	1.9	230	89	1	677	34	7	22	36	1.82
1363454--1363493	18	2.2	18	95	0	71	40	17	30	12	1.86
1363460--1363500	18	2.3	18	91	0	64	46	14	31	7	1.72
1368243--1368673	200	2.2	199	83	3	535	37	15	14	32	1.87
1368416--1368978	280	2.0	280	99	0	1108	35	15	14	33	1.88
1370253--1370755	108	4.6	108	75	8	458	33	15	13	36	1.88
1370341--1370856	226	2.3	224	85	4	716	34	15	13	37	1.86
1370136--1370755	334	1.9	334	87	1	929	33	15	13	37	1.87
1371303--1371378	21	3.5	21	82	12	91	36	1	3	57	1.25
1371295--1371378	44	1.9	42	83	7	105	36	1	3	58	1.23
1371360--1371411	16	3.1	16	74	15	59	40	1	0	57	1.10
1371487--1371539	15	3.8	15	69	25	53	50	5	0	43	1.25
1371484--1371561	25	3.2	26	87	7	101	52	3	0	43	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374470--1374528	20	3.0	20	87	5	84	54	5	13	27	1.60
1380741--1380883	74	1.9	74	86	0	205	44	11	12	31	1.77
1382132--1382175	20	2.3	19	81	11	54	27	25	9	38	1.86
1382137--1382174	20	1.9	20	88	0	58	26	23	10	39	1.87
1382277--1382440	83	2.0	83	100	0	328	32	14	14	37	1.87
1385385--1385437	28	1.9	28	88	11	83	62	0	24	13	1.31
1386984--1387033	21	2.4	22	80	12	61	42	20	6	32	1.76
1394726--1394777	21	2.5	22	81	12	65	42	21	5	30	1.76
1395921--1396008	28	3.1	29	79	6	90	27	15	6	50	1.70
1400581--1400607	13	2.1	13	100	0	54	37	7	14	40	1.74
1404641--1404676	12	3.0	12	91	0	54	30	22	36	11	1.89
1405897--1405934	19	2.0	19	100	0	76	31	21	21	26	1.98
1408058--1408127	28	2.6	27	74	19	65	32	5	8	52	1.55
1414163--1414263	31	3.2	31	68	18	82	35	10	17	35	1.85
1414149--1414278	63	2.1	63	86	0	179	33	12	16	37	1.86
1417279--1417358	13	5.8	15	66	20	50	51	0	0	48	1.00
1418508--1418550	20	2.3	19	88	8	61	20	18	9	51	1.74
1424367--1424472	30	3.6	30	83	3	108	38	11	9	40	1.74
1425741--1425783	22	2.0	22	90	4	70	74	2	0	23	0.93
1426911--1427101	106	1.8	105	85	9	275	56	4	3	36	1.35
1427098--1427154	30	1.9	30	92	0	96	56	1	1	40	1.20
1428141--1428315	65	2.7	65	83	5	174	32	17	21	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1428182--1428315	65	2.1	65	88	2	198	31	17	21	29	1.97
1429877--1429902	13	2.0	13	100	0	52	46	15	0	38	1.46
1435582--1435676	43	2.2	43	98	1	181	33	8	13	44	1.74
1444780--1444921	21	6.7	21	82	10	173	22	36	18	22	1.95
1445030--1445083	21	2.6	21	100	0	108	27	29	24	18	1.98
1448038--1448085	20	2.4	20	89	0	78	50	8	8	33	1.63
1448124--1448163	21	1.9	21	94	0	71	32	12	7	47	1.69
1448386--1448485	21	4.7	21	82	11	132	22	38	20	20	1.94
1454712--1454763	25	2.1	25	100	0	104	26	19	28	25	1.98
1464267--1464305	20	2.0	20	89	0	60	33	10	23	33	1.88
1470171--1470204	7	4.7	7	85	7	50	29	0	0	70	0.87
1470171--1470213	15	2.9	15	86	6	52	32	0	0	67	0.91
1470354--1470396	21	2.0	21	90	0	68	41	2	0	55	1.12
1470362--1470401	21	1.9	21	94	0	71	40	2	0	57	1.12
1472504--1472539	16	2.2	17	90	5	56	47	0	2	50	1.15
1473000--1473048	15	3.3	15	91	0	71	36	18	30	14	1.90
1472994--1473057	21	3.4	19	73	24	55	34	17	31	17	1.93
1473578--1473624	23	2.0	23	84	8	60	23	4	8	63	1.40
1473580--1473624	22	2.0	23	82	4	56	22	4	8	64	1.40
1476580--1476613	2	17.0	2	100	0	68	0	50	0	50	1.00
1476613--1476647	2	17.5	2	100	0	70	48	0	0	51	1.00
1478951--1478995	10	4.5	10	85	0	54	28	33	26	11	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1478958--1479004	20	2.3	20	96	0	85	27	31	25	14	1.95
1478936--1479004	30	2.2	33	85	15	92	26	33	26	14	1.94
1478958--1479004	10	4.7	10	84	5	60	27	31	25	14	1.95
1479069--1479145	29	2.7	29	91	0	127	20	28	37	12	1.90
1479212--1479268	29	2.0	29	92	0	96	21	26	33	19	1.97
1480262--1480301	19	2.2	18	95	4	71	82	7	5	5	0.94
1480367--1480407	16	2.6	16	80	0	55	58	0	0	41	0.98
1482138--1483017	105	8.4	105	95	0	1571	22	17	25	34	1.96
1482138--1483017	316	2.8	316	95	0	1566	22	17	25	34	1.96
1496804--1496850	3	15.3	3	91	4	76	61	0	0	38	0.96
1498956--1498992	19	1.9	19	100	0	74	32	27	16	24	1.96
1499110--1499154	20	2.2	20	92	0	72	26	31	15	26	1.96
1499333--1499379	22	2.1	22	96	0	85	21	42	14	21	1.88
1499780--1499831	20	2.7	19	90	3	77	17	19	26	36	1.94
1499769--1499854	20	4.4	19	82	7	75	15	16	24	44	1.86
1499818--1499861	20	2.2	20	91	0	70	11	13	20	54	1.69
1501750--1501788	20	2.0	20	89	0	60	33	23	23	20	1.97
1501868--1501906	19	2.0	20	90	5	62	12	15	20	51	1.76
1501899--1501933	14	2.5	14	100	0	70	14	14	22	48	1.79
1501926--1501973	20	2.4	20	96	0	87	14	20	27	37	1.92
1501960--1502003	20	2.2	20	95	0	79	13	13	22	50	1.77
1502532--1502601	21	3.3	21	74	5	70	22	35	20	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502479--1502601	42	2.9	42	78	2	122	23	34	18	22	1.96
1503980--1504019	13	3.0	13	78	7	53	30	0	15	55	1.41
1504130--1504227	20	4.9	20	89	0	133	43	23	17	15	1.87
1504216--1504408	20	10.3	19	72	15	82	23	18	22	35	1.96
1504216--1504408	34	5.2	40	73	13	169	23	18	22	35	1.96
1504216--1504408	94	2.1	93	86	4	264	23	18	22	35	1.96
1504266--1504450	54	3.3	54	84	6	210	25	16	21	36	1.94
1504205--1504448	74	3.3	71	69	8	175	25	18	21	34	1.96
1504421--1504703	140	2.0	140	96	0	521	44	14	12	28	1.82
1504761--1504795	18	1.9	18	94	0	61	17	2	25	54	1.57

Tables:   1   2   3   4   5   6   7   8   9